Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 52 of 64
Found at i:10586174 original size:41 final size:39
Alignment explanation
Indices: 10586111--10586206 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 39
10586101 AGACTATTGT
*
10586111 GACGTTTG-AAAAAAGCCACTAAAGTA-GAATTCTATAAC
1 GACGTTTGTAAAAAAACCACTAAAGTACG-ATTCTATAAC
* *
10586149 GACGTTTGTATAAAAACACCACTAAAGTACGATTTTATAGC
1 GACGTTTGTA-AAAAA-ACCACTAAAGTACGATTCTATAAC
* *
10586190 GGCGTTTGTAAACAAAC
1 GACGTTTGTAAAAAAAC
10586207 GACACGAAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
38 8 0.16
39 3 0.06
40 9 0.18
41 28 0.57
42 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (39 bp):
GACGTTTGTAAAAAAACCACTAAAGTACGATTCTATAAC
Found at i:10587233 original size:245 final size:237
Alignment explanation
Indices: 10586809--10587305 Score: 800
Period size: 245 Copynumber: 2.1 Consensus size: 237
10586799 CACGATAAGA
* * *
10586809 ATAAGGGACGAAGTTACTTTATTAACTTGTATTAGACGCATCAAGAGATCTTACTTTTGTCTTTT
1 ATAAGGGACAAAGTTACTCTATTAACTTGTATTAGACGCATCAAAAGATCTTACTTTTGTCTTTT
* *
10586874 GCACAACAAGCATGGTCATTAGGTTTATCTGATACTGTTGTGTACAACACCACCCATAAGTATGT
66 GCACAACAAGCATGGTCATTAGCTTCATCTGATACTGTTGTGTACAACACCACCCATAAGTATGT
*
10586939 ATGGGAAGATTACATATGTTAAAAATCCTTCATTTAAGGTCCATTTAAAATTTTATGTAATCCGA
131 ATGGGAAGATTACATATGTTAAAAATCCTTCATTTAAGGTCCATTTAAAATTTTATGTAATCAGA
10587004 ATTGGTTAAATGAACATTTCGGTTCAAATTTATATTCCCATG
196 ATTGGTTAAATGAACATTTCGGTTCAAATTTATATTCCCATG
10587046 ATAAGGGACAAAGTTACTCTATTAACTTGTATTAG-CTGCATCAAAAGATCTTACTTTTTGTCTT
1 ATAAGGGACAAAGTTACTCTATTAACTTGTATTAGAC-GCATCAAAAGATCTTAC-TTTTGTC--
10587110 TTGGTCATAGCACAACAAGCATGGTCATTAGCTTCATCTGATACTGTTGTGTACAACACCACCCA
62 TT--T--T-GCACAACAAGCATGGTCATTAGCTTCATCTGATACTGTTGTGTACAACACCACCCA
* *
10587175 TAAGTATGTATGGGAATATTACATATGTTAAAAATCCTTCATTTAAGGTCCCTTTAAAATTTTAT
122 TAAGTATGTATGGGAAGATTACATATGTTAAAAATCCTTCATTTAAGGTCCATTTAAAATTTTAT
* *
10587240 GTAATCAGGATTGGTTAAATGAACATTTCGGTTCAAATTTTTATTCCCATG
187 GTAATCAGAATTGGTTAAATGAACATTTCGGTTCAAATTTATATTCCCATG
*
10587291 ATAATGGA-AAAGTTA
1 ATAAGGGACAAAGTTA
10587306 TGGTGTTGGA
Statistics
Matches: 240, Mismatches: 11, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
236 1 0.00
237 49 0.20
238 7 0.03
240 2 0.01
242 1 0.00
244 8 0.03
245 172 0.72
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (237 bp):
ATAAGGGACAAAGTTACTCTATTAACTTGTATTAGACGCATCAAAAGATCTTACTTTTGTCTTTT
GCACAACAAGCATGGTCATTAGCTTCATCTGATACTGTTGTGTACAACACCACCCATAAGTATGT
ATGGGAAGATTACATATGTTAAAAATCCTTCATTTAAGGTCCATTTAAAATTTTATGTAATCAGA
ATTGGTTAAATGAACATTTCGGTTCAAATTTATATTCCCATG
Found at i:10588280 original size:23 final size:23
Alignment explanation
Indices: 10588250--10588293 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10588240 ATTTTTTTAC
10588250 AAACGCCGCTAAAGGTTATGATA
1 AAACGCCGCTAAAGGTTATGATA
*
10588273 AAACGCCGCTAAATGTTATGA
1 AAACGCCGCTAAAGGTTATGA
10588294 CATATAGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (23 bp):
AAACGCCGCTAAAGGTTATGATA
Found at i:10588550 original size:17 final size:17
Alignment explanation
Indices: 10588516--10588552 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
10588506 ACTCAAATTT
*
10588516 AATATCTTGACAACAAA
1 AATATCTTGAAAACAAA
10588533 AATA-CTTGAAAACAAA
1 AATATCTTGAAAACAAA
10588549 AATA
1 AATA
10588553 AATCAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (17 bp):
AATATCTTGAAAACAAA
Found at i:10592120 original size:2 final size:2
Alignment explanation
Indices: 10592113--10592146 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10592103 GAGAGTAGAC
10592113 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10592147 TAATAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10593430 original size:3 final size:3
Alignment explanation
Indices: 10593422--10593447 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10593412 TCTACATAAA
10593422 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
10593448 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10595796 original size:15 final size:14
Alignment explanation
Indices: 10595758--10595800 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10595748 TTTTATCTTA
*
10595758 AAAACGATTTTTCTT
1 AAAACTATTTTT-TT
*
10595773 AAAATTATTTTTTT
1 AAAACTATTTTTTT
10595787 AAAAGCTATTTTTT
1 AAAA-CTATTTTTT
10595801 AGGTATTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (14 bp):
AAAACTATTTTTTT
Found at i:10596380 original size:69 final size:69
Alignment explanation
Indices: 10596269--10596401 Score: 239
Period size: 69 Copynumber: 1.9 Consensus size: 69
10596259 AAAGCTTAAC
* *
10596269 CTACGTGAGATGAATTGTTTCTCCCTATGGGTTTTAGCAAGTAATCTTTAGGGTTCATATACTTT
1 CTACGTGAGATAAATTGTTTCTCCATATGGGTTTTAGCAAGTAATCTTTAGGGTTCATATACTTT
10596334 ATAT
66 ATAT
*
10596338 CTACGTGAGATAAATTGTTTCTCCATATGGGTTTTAGCAAGTAATCTTTGGGGTTCATATACTT
1 CTACGTGAGATAAATTGTTTCTCCATATGGGTTTTAGCAAGTAATCTTTAGGGTTCATATACTT
10596402 GATCAACACG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (69 bp):
CTACGTGAGATAAATTGTTTCTCCATATGGGTTTTAGCAAGTAATCTTTAGGGTTCATATACTTT
ATAT
Found at i:10596862 original size:13 final size:13
Alignment explanation
Indices: 10596844--10596868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10596834 ACTAACTTAT
10596844 CTTGTTTCTTTTG
1 CTTGTTTCTTTTG
10596857 CTTGTTTCTTTT
1 CTTGTTTCTTTT
10596869 TTCGTCCCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.12, T:0.72
Consensus pattern (13 bp):
CTTGTTTCTTTTG
Found at i:10596956 original size:63 final size:63
Alignment explanation
Indices: 10596881--10597007 Score: 191
Period size: 63 Copynumber: 2.0 Consensus size: 63
10596871 CGTCCCTTGT
* **
10596881 TGCATTGCATTTCAGAGGATTATAAATTTTGCATCTGCATTTGCATCTTTGCATTCTGCATGA
1 TGCATTGCATTTCAGAGGATCATAAATTTTGCATCTGCATTTGCATCTTCACATTCTGCATGA
* * * *
10596944 TGCATTGTATTTCAGAGGATCATCACTTTTGCATCTGTATTTGCATCTTCACATTCTGCATGA
1 TGCATTGCATTTCAGAGGATCATAAATTTTGCATCTGCATTTGCATCTTCACATTCTGCATGA
10597007 T
1 T
10597008 CATCATAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (63 bp):
TGCATTGCATTTCAGAGGATCATAAATTTTGCATCTGCATTTGCATCTTCACATTCTGCATGA
Found at i:10599488 original size:17 final size:19
Alignment explanation
Indices: 10599449--10599495 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
10599439 TAGCTTTGAG
10599449 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
10599468 TGCATCGGTGCAT-GA-AA
1 TGCATCGATGCATGGAGAA
10599485 TGCATTCGATG
1 TGCA-TCGATG
10599496 TTTCAAGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 7 0.28
19 12 0.48
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:10599488 original size:65 final size:64
Alignment explanation
Indices: 10599403--10599547 Score: 186
Period size: 65 Copynumber: 2.2 Consensus size: 64
10599393 GCACCAAGTG
* * * *
10599403 TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AATAGCTTTGAGTGCATCGATGCATGGA-G
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAGAAT-GCATCGA-TGCATCGATGCATGGACG
10599466 AA
64 -A
*
10599468 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAGTAATTCATCGATGCATCGATGCATGGACTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAG-AATGCATCGATGCATCGATGCATGGAC-G
10599533 A
64 A
10599534 TGCATCGGTGCATG
1 TGCATCGGTGCATG
10599548 CCTTTGAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
65 48 0.68
66 19 0.27
67 4 0.06
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAGAATGCATCGATGCATCGATGCATGGACGA
Found at i:10599901 original size:13 final size:13
Alignment explanation
Indices: 10599883--10599910 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10599873 TTGAAAAACT
10599883 TACTCCCCCTTAC
1 TACTCCCCCTTAC
10599896 TACTCCCCCTTAC
1 TACTCCCCCTTAC
10599909 TA
1 TA
10599911 TAGCATATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.50, G:0.00, T:0.32
Consensus pattern (13 bp):
TACTCCCCCTTAC
Found at i:10600581 original size:21 final size:21
Alignment explanation
Indices: 10600557--10600600 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10600547 GAGGAGGAGG
*
10600557 AGGAGGAGCACGAGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
* *
10600578 AGGAGCAGCTCGTGAAGAACT
1 AGGAGCAGCACGAGAAGAACT
10600599 AG
1 AG
10600601 CTCCCGGGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.16, G:0.36, T:0.09
Consensus pattern (21 bp):
AGGAGCAGCACGAGAAGAACT
Found at i:10610962 original size:126 final size:126
Alignment explanation
Indices: 10610734--10611058 Score: 506
Period size: 126 Copynumber: 2.6 Consensus size: 126
10610724 GGGAAAAACC
* * * * *
10610734 CCCTTAGATGGCCAAGACTTATGAACAGATGAGCAATGTCATCACCTGACCAAATCTCCTCATTA
1 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACATGATCAGATCTCCTCATTA
* ** * *
10610799 TGTAGGAGTTGTGTCAACTCAGATAACCATTCATCCCCATCCGAGTAGAACCGTGTTATTA
66 TGTAGGAGTTATGTCAACTCAGATAACCAGCCATCCCCATCAGAGTAGAACCGTGTTATCA
*
10610860 CCCTTAGATGGCCAAGACTCATGAACATATGAGCAGTGTCATCACATGATCAGATCTCCTCATTA
1 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACATGATCAGATCTCCTCATTA
* * * *
10610925 TGTAGGAGTTATGTTAACTCAGATAACCAGCCGTCCCCATTAGAGTGGAACCGTGTTATCA
66 TGTAGGAGTTATGTCAACTCAGATAACCAGCCATCCCCATCAGAGTAGAACCGTGTTATCA
*
10610986 CCCTTAGATGGCTAAGACTCATGAACAGATGAGCAGTGTCATCACATGATCAGATCTCCTCATTA
1 CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACATGATCAGATCTCCTCATTA
10611051 TGTAGGAG
66 TGTAGGAG
10611059 CCGTGTCAAT
Statistics
Matches: 182, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 182 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (126 bp):
CCCTTAGATGGCCAAGACTCATGAACAGATGAGCAGTGTCATCACATGATCAGATCTCCTCATTA
TGTAGGAGTTATGTCAACTCAGATAACCAGCCATCCCCATCAGAGTAGAACCGTGTTATCA
Found at i:10611264 original size:3 final size:3
Alignment explanation
Indices: 10611258--10611292 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
10611248 AATTAATTAA
10611258 ATT ATT ATT ATT ATT ATT ATT ATT ATT AATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT A
10611293 CATTTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:10611854 original size:17 final size:17
Alignment explanation
Indices: 10611817--10611857 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
10611807 ATTCGGGATT
*
10611817 TAGAAAAATAACCCAAA
1 TAGAAAAATAAACCAAA
*
10611834 -AGAAACATAAACCAAA
1 TAGAAAAATAAACCAAA
10611850 TAGAAAAA
1 TAGAAAAA
10611858 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.68, C:0.15, G:0.07, T:0.10
Consensus pattern (17 bp):
TAGAAAAATAAACCAAA
Found at i:10612084 original size:20 final size:20
Alignment explanation
Indices: 10612059--10612102 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10612049 GTTTTCCTCA
*
10612059 GGATGAACAGTTAAGAAAGG
1 GGATGAACAGCTAAGAAAGG
*
10612079 GGATGAACAGCTGAGAAAGG
1 GGATGAACAGCTAAGAAAGG
10612099 GGAT
1 GGAT
10612103 TGAAATCAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.39, T:0.14
Consensus pattern (20 bp):
GGATGAACAGCTAAGAAAGG
Found at i:10612882 original size:29 final size:30
Alignment explanation
Indices: 10612812--10612895 Score: 107
Period size: 29 Copynumber: 2.8 Consensus size: 30
10612802 TTCTAGTTTT
*
10612812 TATTTTTATTATTTTAGTCCTTTAACTTTC
1 TATTTTTATTATTTTAGTCCTTTAACGTTC
* *
10612842 TACTTTTATTATTTTAGTTCTTTAA-GTTC
1 TATTTTTATTATTTTAGTCCTTTAACGTTC
* * *
10612871 TATTTTTGTTATTTTGGACCTTTAA
1 TATTTTTATTATTTTAGTCCTTTAA
10612896 ACTCTTGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
29 23 0.50
30 23 0.50
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (30 bp):
TATTTTTATTATTTTAGTCCTTTAACGTTC
Found at i:10612934 original size:30 final size:28
Alignment explanation
Indices: 10612850--10612935 Score: 75
Period size: 30 Copynumber: 3.0 Consensus size: 28
10612840 TCTACTTTTA
*
10612850 TTATTTTAGTTCTTTAAGTTCTATT-TTTG
1 TTATTTTGGTTCTTTAAGTT-T-TTGTTTG
** ** *
10612879 TTATTTTGGACCTTTAAACTCTTGTTTG
1 TTATTTTGGTTCTTTAAGTTTTTGTTTG
10612907 TACTATTTTGGTTCTTTAAGTTTTTGTTT
1 T--TATTTTGGTTCTTTAAGTTTTTGTTT
10612936 TCCCCATTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
27 2 0.05
28 5 0.12
29 15 0.35
30 21 0.49
ACGTcount: A:0.16, C:0.09, G:0.13, T:0.62
Consensus pattern (28 bp):
TTATTTTGGTTCTTTAAGTTTTTGTTTG
Found at i:10613303 original size:16 final size:16
Alignment explanation
Indices: 10613284--10613323 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
10613274 TTTCGAGTAT
10613284 TTTTTATGTTT-TTTTA
1 TTTTTAT-TTTGTTTTA
10613300 TTTTTATTTTGTTTTA
1 TTTTTATTTTGTTTTA
*
10613316 TTTATATT
1 TTTTTATT
10613324 GGCAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTTATTTTGTTTTA
Found at i:10613643 original size:16 final size:16
Alignment explanation
Indices: 10613603--10613644 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10613593 GACGCAGACC
10613603 AATT-TTTTTATCTTAA
1 AATTGTTTTT-TCTTAA
*
10613619 AA-TGATTTTTCTTAA
1 AATTGTTTTTTCTTAA
10613634 AATTGTTTTTT
1 AATTGTTTTTT
10613645 AAAAGATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (16 bp):
AATTGTTTTTTCTTAA
Found at i:10613857 original size:20 final size:20
Alignment explanation
Indices: 10613832--10613873 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10613822 TCAATATAAG
*
10613832 ATTATAACTATTTTATC-ATT
1 ATTATAACT-TTTGATCTATT
10613852 ATTATAACTTTTGATCTATT
1 ATTATAACTTTTGATCTATT
10613872 AT
1 AT
10613874 CCTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATAACTTTTGATCTATT
Found at i:10614893 original size:17 final size:18
Alignment explanation
Indices: 10614845--10614891 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
10614835 TTTATTTCAT
*
10614845 TTTAGTATTTAAATTATA
1 TTTAATATTTAAATTATA
*
10614863 TTT-ATTTTTAAATTATA
1 TTTAATATTTAAATTATA
10614880 TTTAATATTTAA
1 TTTAATATTTAA
10614892 TTTAGATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTAATATTTAAATTATA
Found at i:10617914 original size:35 final size:35
Alignment explanation
Indices: 10617858--10617924 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
10617848 CTTAGGTCCG
10617858 TAAGGAATTACCAGCTCGATCG-GTTTGAACCTATA
1 TAAGGAATTACCAGCTCGATCGAG-TTGAACCTATA
* * *
10617893 TAAGGAATTATCAGTTTGATCGAGTTGAACCT
1 TAAGGAATTACCAGCTCGATCGAGTTGAACCT
10617925 CCATACTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (35 bp):
TAAGGAATTACCAGCTCGATCGAGTTGAACCTATA
Found at i:10620178 original size:65 final size:64
Alignment explanation
Indices: 10620109--10620233 Score: 144
Period size: 65 Copynumber: 1.9 Consensus size: 64
10620099 TACACTAGGG
* * * *
10620109 GTGCATCGATGCATAAAATACATTCGATCTTTC-AAATGAGCCTGGAGTGCATCGATGCATGGTC
1 GTGCATCGATACACAAAATACATTCGAT-GTTCAAAAT-AGCCAGGAGTGCATCGATGCATGGTC
10620173 T
64 T
* * * **
10620174 GTGCATCGGTACACAAAATGCATTTGATGTTCAAAATATTCAGGAGTGCATCGATGCATG
1 GTGCATCGATACACAAAATACATTCGATGTTCAAAATAGCCAGGAGTGCATCGATGCATG
10620234 CCTTTTGCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
64 23 0.46
65 27 0.54
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (64 bp):
GTGCATCGATACACAAAATACATTCGATGTTCAAAATAGCCAGGAGTGCATCGATGCATGGTCT
Found at i:10620227 original size:64 final size:65
Alignment explanation
Indices: 10620152--10620296 Score: 179
Period size: 64 Copynumber: 2.3 Consensus size: 65
10620142 AAATGAGCCT
* ** **
10620152 GGAGTGCATCGATGCATG-GTCTGTGCATCGGTACACAAAATGCATTTGATGTTCAAAATATTC-
1 GGAGTGCATCGATGCATGCCT-TGTGCATCGGTACACAAAATGCATTCAAAATTCAAAATATTCA
10620215 A
65 A
* * **
10620216 GGAGTGCATCGATGCATGCCTTTTGCATCGGTACACAAATTGCATTCAAAATTCAATTTATTCAA
1 GGAGTGCATCGATGCATGCCTTGTGCATCGGTACACAAAATGCATTCAAAATTCAAAATATTCAA
10620281 GG-GTGCATCGATGCAT
1 GGAGTGCATCGATGCAT
10620297 TAAATGGTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 66 0.94
65 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (65 bp):
GGAGTGCATCGATGCATGCCTTGTGCATCGGTACACAAAATGCATTCAAAATTCAAAATATTCAA
Found at i:10620691 original size:24 final size:25
Alignment explanation
Indices: 10620653--10620707 Score: 103
Period size: 24 Copynumber: 2.2 Consensus size: 25
10620643 TGAAAAATTA
10620653 CTCCCCTTTACTATAACACATCTTT
1 CTCCCCTTTACTATAACACATCTTT
10620678 CTCCCC-TTACTATAACACATCTTT
1 CTCCCCTTTACTATAACACATCTTT
10620702 CTCCCC
1 CTCCCC
10620708 CTTTTTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.22, C:0.42, G:0.00, T:0.36
Consensus pattern (25 bp):
CTCCCCTTTACTATAACACATCTTT
Found at i:10622986 original size:23 final size:23
Alignment explanation
Indices: 10622949--10623031 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
10622939 ATGCATAGTA
10622949 GAGTGCATCGATGCACATTCAAT
1 GAGTGCATCGATGCACATTCAAT
* * *
10622972 GAGTGCGTCGGTGCACCTTC-AT
1 GAGTGCATCGATGCACATTCAAT
* *
10622994 G-GTGAATCAATGCACATTCAA-
1 GAGTGCATCGATGCACATTCAAT
*
10623015 GGGATGCATCGATGCAC
1 GAG-TGCATCGATGCAC
10623032 TAACTAGTGT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
21 14 0.30
22 5 0.11
23 28 0.60
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (23 bp):
GAGTGCATCGATGCACATTCAAT
Found at i:10623319 original size:74 final size:74
Alignment explanation
Indices: 10623214--10623362 Score: 271
Period size: 74 Copynumber: 2.0 Consensus size: 74
10623204 ATTAAGAATC
* *
10623214 ATAAACTCCCCCTAACTAATAGCAAAGAATGCAATCAAAAGAGTCATTTTTATAAGCATTTTTCA
1 ATAAACTCCCCCTAACTAATAACAAAAAATGCAATCAAAAGAGTCATTTTTATAAGCATTTTTCA
10623279 ATCAAAATT
66 ATCAAAATT
*
10623288 ATAAACTCCCCCTAACTAATAACAAAAAATGCAATCAAAAGAGTTATTTTTATAAGCATTTTTCA
1 ATAAACTCCCCCTAACTAATAACAAAAAATGCAATCAAAAGAGTCATTTTTATAAGCATTTTTCA
10623353 ATCAAAATT
66 ATCAAAATT
10623362 A
1 A
10623363 AAAGTGCTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (74 bp):
ATAAACTCCCCCTAACTAATAACAAAAAATGCAATCAAAAGAGTCATTTTTATAAGCATTTTTCA
ATCAAAATT
Found at i:10626962 original size:22 final size:21
Alignment explanation
Indices: 10626920--10626959 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10626910 AAGACTATTT
10626920 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTGAAATA
10626941 TCATTTTTGT-ATTTTGAAA
1 TCATTTTT-TAATTTTGAAA
10626960 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTGAAATA
Found at i:10628899 original size:64 final size:65
Alignment explanation
Indices: 10628821--10628965 Score: 188
Period size: 64 Copynumber: 2.3 Consensus size: 65
10628811 AAATGAGCCT
* * **
10628821 GGAGTGCATCGATGCATG-GTCTGTGCATCGGTACACAAAATGCACTCGATGTTCAAAATATTC-
1 GGAGTGCATCGATGCATGCCT-TGTGCATCGATACACAAAATGCACTCGAAATTCAAAATATTCA
10628884 A
65 A
* * **
10628885 GGAGTGCATTGATGCATGCCTTGTGCATCGATACACAAAATGCATTCGAAATTCAATTTATTCAA
1 GGAGTGCATCGATGCATGCCTTGTGCATCGATACACAAAATGCACTCGAAATTCAAAATATTCAA
10628950 GG-GTGCATCGATGCAT
1 GGAGTGCATCGATGCAT
10628966 TAAATGGTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 66 0.94
65 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (65 bp):
GGAGTGCATCGATGCATGCCTTGTGCATCGATACACAAAATGCACTCGAAATTCAAAATATTCAA
Found at i:10631658 original size:3 final size:3
Alignment explanation
Indices: 10631650--10631716 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
10631640 ATAAACCCTT
10631650 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10631697 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
10631717 CCTTCCCCAA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10637040 original size:47 final size:48
Alignment explanation
Indices: 10636983--10637209 Score: 194
Period size: 49 Copynumber: 4.7 Consensus size: 48
10636973 GGAAAAAGAC
*
10636983 TATGCTCCGCTGCTATTGAGGGTAGGTCAGATCG-GAAAA-AAATGAGA
1 TATGCTCCGCTGCTCTT-AGGGTAGGTCAGATCGAGAAAAGAAATGAGA
*
10637030 TATGCTCCGCTACTCTCTAGGGTAGGTCAGATCGAGAAAAGAAATGAGA
1 TATGCTCCGCTGCTCT-TAGGGTAGGTCAGATCGAGAAAAGAAATGAGA
* * * *
10637079 TCTGCTCCGCTGCTCTTAAGGGTAGGTTAG-TCTGGGAAAGGAAA-GAAGA
1 TATGCTCCGCTGCTCTT-AGGGTAGGTCAGATC-GAGAAAAGAAATG-AGA
* * * * * *
10637128 TATGCTCTGTTTCTCTCCAGGGTAAGTCAGATC-AGGAAAAGAAAGGAGA
1 TATGCTCCGCTGCTCT-TAGGGTAGGTCAGATCGA-GAAAAGAAATGAGA
* * ** *
10637177 TTTTCTCCAATGCTCTTCAAGGTAGGTCAGATC
1 TATGCTCCGCTGCTCTT-AGGGTAGGTCAGATC
10637210 AGCAAAAAAA
Statistics
Matches: 144, Mismatches: 25, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
47 30 0.21
48 10 0.07
49 101 0.70
50 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (48 bp):
TATGCTCCGCTGCTCTTAGGGTAGGTCAGATCGAGAAAAGAAATGAGA
Found at i:10637157 original size:98 final size:96
Alignment explanation
Indices: 10636985--10637219 Score: 244
Period size: 98 Copynumber: 2.4 Consensus size: 96
10636975 AAAAAGACTA
* * *
10636985 TGCTCCGCTGCTATTGAGGGTAGGTCAGATCGGAAAAAAATGAGATATGCTCCGCTACTCTCTAG
1 TGCTCCGCTGCTCTTAAGGGTAGGTCAGATCGGAAAAAAATGAGATATGCTCCGCTACTCTCCAG
* *
10637050 GGTAGGTCAGATC-GAGAAAAGAAATGAGATC
66 GGTAAGTCAGATCAG-GAAAAGAAAGGAGATC
* * * * *
10637081 TGCTCCGCTGCTCTTAAGGGTAGGTTAG-TCTGGGAAAGGAAA-GAAGATATGCTCTGTTTCTCT
1 TGCTCCGCTGCTCTTAAGGGTAGGTCAGATC--GGAAA-AAAATG-AGATATGCTCCGCTACTCT
*
10637144 CCAGGGTAAGTCAGATCAGGAAAAGAAAGGAGATT
62 CCAGGGTAAGTCAGATCAGGAAAAGAAAGGAGATC
* ** *
10637179 TTCTCCAATGCTCTTCAA-GGTAGGTCAGATCAGCAAAAAAA
1 TGCTCCGCTGCTCTT-AAGGGTAGGTCAGATC-GGAAAAAAA
10637220 AGAATATCTA
Statistics
Matches: 114, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
95 2 0.02
96 25 0.22
97 9 0.08
98 73 0.64
99 5 0.04
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (96 bp):
TGCTCCGCTGCTCTTAAGGGTAGGTCAGATCGGAAAAAAATGAGATATGCTCCGCTACTCTCCAG
GGTAAGTCAGATCAGGAAAAGAAAGGAGATC
Found at i:10638934 original size:6 final size:6
Alignment explanation
Indices: 10638923--10638961 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
10638913 TCTATTTTTC
10638923 TTCTTT TTCTTT TTCTTT GTT-TTT TTCTTCT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT -TTCTTT TTCTT-T TTCTTT TT
10638962 TCAAGAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 2 0.07
6 20 0.67
7 8 0.27
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:10638937 original size:15 final size:14
Alignment explanation
Indices: 10638917--10638963 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10638907 TTTTACTCTA
10638917 TTTTTCTTCTTTTT
1 TTTTTCTTCTTTTT
*
10638931 CTTTTTC-T-TTGTT
1 -TTTTTCTTCTTTTT
*
10638944 TTTTTCTTCTTTCT
1 TTTTTCTTCTTTTT
10638958 TTTTTC
1 TTTTTC
10638964 AAGAAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 6 0.22
13 5 0.19
14 10 0.37
15 6 0.22
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (14 bp):
TTTTTCTTCTTTTT
Found at i:10642350 original size:64 final size:64
Alignment explanation
Indices: 10642282--10642416 Score: 155
Period size: 65 Copynumber: 2.1 Consensus size: 64
10642272 ACAAATCATC
* * * * *
10642282 TTCGATGTTTCAAAATAACCATGG-TGCATCGATGCATGTCTTGTGCATCGGTGAACTGAATGTA
1 TTCGAAGTTTCAAAATAACCAGGGTTG-ATCGATGCATGGCTTGTGCATCGGTGAACTAAATGCA
** ** *
10642346 TTCGAAGTTTTTAAATATTCAGGGTTTGATCGATGCATGGCTTGTGCATCGGTGCACTAAATGCA
1 TTCGAAGTTTCAAAATAACCAGGG-TTGATCGATGCATGGCTTGTGCATCGGTGAACTAAATGCA
10642411 TTCGAA
1 TTCGAA
10642417 ATTCAATTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
64 18 0.31
65 39 0.66
66 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (64 bp):
TTCGAAGTTTCAAAATAACCAGGGTTGATCGATGCATGGCTTGTGCATCGGTGAACTAAATGCA
Found at i:10646525 original size:16 final size:16
Alignment explanation
Indices: 10646506--10646541 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10646496 AGTGTGACCA
*
10646506 TTGAATGGTCTGACTG
1 TTGAACGGTCTGACTG
*
10646522 TTGACCGGTCTGACTG
1 TTGAACGGTCTGACTG
10646538 TTGA
1 TTGA
10646542 CCATTTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.36
Consensus pattern (16 bp):
TTGAACGGTCTGACTG
Found at i:10646542 original size:16 final size:16
Alignment explanation
Indices: 10646512--10646543 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10646502 ACCATTGAAT
10646512 GGTCTGACTGTTGACC
1 GGTCTGACTGTTGACC
10646528 GGTCTGACTGTTGACC
1 GGTCTGACTGTTGACC
10646544 ATTTACTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (16 bp):
GGTCTGACTGTTGACC
Found at i:10651061 original size:27 final size:28
Alignment explanation
Indices: 10651009--10651083 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 28
10650999 CTTGGATGAG
* * *
10651009 AAATTATGACAATA-CTTCTATTAGGT-A
1 AAATTATGAAAATACCCT-TATGAGGTAA
10651036 AAATTATGAAAATACCCTTATGAGGTAAA
1 AAATTATGAAAATACCCTTATGAGGT-AA
**
10651065 AAATTACAAAAATACCCTT
1 AAATTATGAAAATACCCTT
10651084 GAAGTGTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 20 0.50
28 2 0.05
29 18 0.45
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (28 bp):
AAATTATGAAAATACCCTTATGAGGTAA
Found at i:10658125 original size:276 final size:275
Alignment explanation
Indices: 10657633--10658164 Score: 1010
Period size: 276 Copynumber: 1.9 Consensus size: 275
10657623 AAGAGGAAAG
10657633 AAGGTTGGATGCACACATGGTGCGAGGAGGAACAAGGGTGGTCTCGCGTACATCATACGCGCTGA
1 AAGGTTGGATGCACACATGGTGCGAGGAGGAACAAGGGTGGTCTCGCGTACATCATACGCGCTGA
*
10657698 CGATGGAGCTATGGACGGCTTGGAGACACCTGAAACGTTACACGCGCTTCACTGGCGCATGGTTT
66 AGATGGAGCTATGGACGGCTTGGAGACACCTGAAACGTTACACGCGCTTCACTGGCGCATGGTTT
10657763 GGCCACTCAAGGAGTCTTGGAGCAATCAGGGCCATCAGATCAAGCCAGATCTAACGGCATGGAGG
131 GGCCACTCAAGGAGTCTTGGAGCAATCAGGGCCATCAGATCAAGCCAGATCTAACGGCATGGAGG
*
10657828 TTCGATGGCATTAGCTAATGTGGGAACCCTAATTTGGGTTGATCTAGACCACTTGATCATTAGCT
196 TTCGATGGCATTAGCTAATGTGGGAACCCTAATTTGGGTTGATCTAGACCACTTGAACATTAGCT
10657893 AATGTGGCATTAGCT
261 AATGTGGCATTAGCT
10657908 AAGGTTGGATGCACACATGGTGCGAGGAGGAACAAGGGTGGTCTCGCGTACATCATACGCGCTGA
1 AAGGTTGGATGCACACATGGTGCGAGGAGGAACAAGGGTGGTCTCGCGTACATCATACGCGCTGA
* *
10657973 AGATGGGGCTATCGGACGGCTTGGAGACACCTGAAACTTTACACGCGCTTCACTGGCGCATGGTT
66 AGATGGAGCTAT-GGACGGCTTGGAGACACCTGAAACGTTACACGCGCTTCACTGGCGCATGGTT
*
10658038 TGGCCACTCAAGGAGTCTTGGAGCAATCAGGTCCATCAGATCAAGCCAGATCTAACGGCATGGAG
130 TGGCCACTCAAGGAGTCTTGGAGCAATCAGGGCCATCAGATCAAGCCAGATCTAACGGCATGGAG
10658103 GTTCGATGGCATTAGCTAATGTGGGAACCCTAATTTGGGTTGATCTAGACCACTTGAACATT
195 GTTCGATGGCATTAGCTAATGTGGGAACCCTAATTTGGGTTGATCTAGACCACTTGAACATT
10658165 GGTAGATCCA
Statistics
Matches: 251, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
275 75 0.30
276 176 0.70
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (275 bp):
AAGGTTGGATGCACACATGGTGCGAGGAGGAACAAGGGTGGTCTCGCGTACATCATACGCGCTGA
AGATGGAGCTATGGACGGCTTGGAGACACCTGAAACGTTACACGCGCTTCACTGGCGCATGGTTT
GGCCACTCAAGGAGTCTTGGAGCAATCAGGGCCATCAGATCAAGCCAGATCTAACGGCATGGAGG
TTCGATGGCATTAGCTAATGTGGGAACCCTAATTTGGGTTGATCTAGACCACTTGAACATTAGCT
AATGTGGCATTAGCT
Found at i:10659901 original size:25 final size:26
Alignment explanation
Indices: 10659872--10659931 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
10659862 CAAAAAAAAG
* *
10659872 AAAAATAAATAAAAATAAAATAGAA-
1 AAAAATAAAGAAAAACAAAATAGAAT
*
10659897 CAAAATAAAGAAAAACAAAATAGAAT
1 AAAAATAAAGAAAAACAAAATAGAAT
10659923 AAAAATAAA
1 AAAAATAAA
10659932 AATAAGGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.13
Consensus pattern (26 bp):
AAAAATAAAGAAAAACAAAATAGAAT
Found at i:10660139 original size:9 final size:9
Alignment explanation
Indices: 10660125--10660166 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
10660115 AAAAACAGAT
10660125 AATAAAATA
1 AATAAAATA
10660134 AAT-AAATA
1 AATAAAATA
10660142 AATAAAATA
1 AATAAAATA
*
10660151 TATAATAAT-
1 AATAA-AATA
10660160 AATAAAA
1 AATAAAA
10660167 GGGCTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 10 0.34
9 16 0.55
10 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAAAATA
Found at i:10661321 original size:2 final size:2
Alignment explanation
Indices: 10661314--10661360 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
10661304 CATAAATGTA
* *
10661314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA AT AT GT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10661354 AT AT AT A
1 AT AT AT A
10661361 ACGTGTATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10661862 original size:10 final size:10
Alignment explanation
Indices: 10661847--10661873 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10661837 TTGTTGCCAA
10661847 CTTGGTCAAC
1 CTTGGTCAAC
10661857 CTTGGTCAAC
1 CTTGGTCAAC
10661867 CTTGGTC
1 CTTGGTC
10661874 TTCTTCTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (10 bp):
CTTGGTCAAC
Found at i:10665194 original size:579 final size:580
Alignment explanation
Indices: 10664095--10665253 Score: 2070
Period size: 579 Copynumber: 2.0 Consensus size: 580
10664085 ATTTTGTCCC
10664095 CGTAAATTTGACATTTATGACATCTTCTAGCATAGTTGATGCAGTCAATTTCCAGTGTGGACCAA
1 CGTAAATTTGACATTTATGACATCTTCTAGCATAGTTGATGCAGTCAATTTCCAGTGTGGACCAA
10664160 AAATATTCGCATATCATTATTTGCCTTGACATCATATGTCCATTTGCATGTGTTCCACAAACTCC
66 AAATATTCGCATATCATTATTTGCCTTGACATCATATGTCCATTTGCATGTGTTCCACAAACTCC
10664225 GTCATGTACTTCCTCCACTATCATCTTTGCCTCTTCTGCATCTACACACCTTAACAGGACTCGAT
131 GTCATGTACTTCCTCCACTATCATCTTTGCCTCTTCTGCATCTACACACCTTAACAGGACTCGAT
*
10664290 CATGGATTTTCTTGTATAAGACCTCCCCATCAAGGACATATCCAACTGCCATCCTTCTAATGGTT
196 CATGGATTTTCTTGTATAAGACCTCCCCATCAAGGACACATCCAACTGCCATCCTTCTAATGGTT
* * *
10664355 CTTTTATCAGTTTTGGTGGCTTCCTCTGGATAACTTCATTTTTTATGTATTGCAGAACGTCATGG
261 CTTTTATAAGTTTTGGTGGCCTCCTCTGGATAACTTCATTTTTTATGTATTGCAGAACATCATGG
* * *
10664420 TACCAGGGCTTAGTGTCTTTCACTTCCTCGACTTGGTAACAATGAGTCTAGTACTCATATTATTG
326 TACCAGGGCTTAGTGTCTTTCACTTCCTCAACTTGGTAACAATGAGTCGAGTACTCATATGATTG
* * *
10664485 CATGTTAATTGGCATCATTTCAGACTCCCTACCAGCCTTGAATGCGGCTGCCAAGGTAGCTAAAG
391 CATGTCAATTGACATCATTTCAGACTCCCCACCAGCCTTGAATGCGGCTGCCAAGGTAGCTAAAG
10664550 CATCAACCATTTGATTTTCTTCTCTATACACATAGTGAAAGGTGACTTTATCGAAATCTTCGAGC
456 CATCAACCATTTGATTTTCTTCTCTATACACATAGTGAAAGGTGACTTTATCGAAATCTTCGAGC
10664615 ATATCCAGTATTAGCTTCTGGTACTCCACCAGCTTTACATCCTTGGTTTCCCACTCTCCA
521 ATATCCAGTATTAGCTTCTGGTACTCCACCAGCTTTACATCCTTGGTTTCCCACTCTCCA
* *
10664675 CGTAAATTTGACATTTATGACATCTT-TAGCATAGTTGATGCATTCATTTTCCAGTGTGGACCAA
1 CGTAAATTTGACATTTATGACATCTTCTAGCATAGTTGATGCAGTCAATTTCCAGTGTGGACCAA
* *
10664739 AAATATTCGCATATTATTATTTTCCTTGACATCATATGTCCATTTGCATGTGTTCCACAAACTCC
66 AAATATTCGCATATCATTATTTGCCTTGACATCATATGTCCATTTGCATGTGTTCCACAAACTCC
*
10664804 GTCATGTACTTCCTCCACTATCATCTTTGCCTCTTCTGCATCTACACACCTTAACAGGACTTGAT
131 GTCATGTACTTCCTCCACTATCATCTTTGCCTCTTCTGCATCTACACACCTTAACAGGACTCGAT
* * *
10664869 CATGGCTTTTCTTGTATAAGACCTCCCCATCAAGGACACATCCAATTGTCATCCTTCTAATGGTT
196 CATGGATTTTCTTGTATAAGACCTCCCCATCAAGGACACATCCAACTGCCATCCTTCTAATGGTT
*
10664934 CTTTTATAAGTTTTGGTGGCCTCCTCTGGATAACTTCGATTTTTTATGTATTGCAGAACATCGTG
261 CTTTTATAAGTTTTGGTGGCCTCCTCTGGATAACTTC-ATTTTTTATGTATTGCAGAACATCATG
10664999 GTACCAGGGCTTAGTGTCTTTCACTTCCTCAACTTGGTAACAATGAGTCGAGTACTCATATGATT
325 GTACCAGGGCTTAGTGTCTTTCACTTCCTCAACTTGGTAACAATGAGTCGAGTACTCATATGATT
* * *
10665064 TCATGTCAATTGACATCATTTCAGACTCCCCGCTAGCCTTGAATGCGGCTGCCAAGGTAGCTAAA
390 GCATGTCAATTGACATCATTTCAGACTCCCCACCAGCCTTGAATGCGGCTGCCAAGGTAGCTAAA
*
10665129 GCATCAACCATTTGATTTTCTTCTCTATGCACATAGTG-AAGGTGACTTTATCGAAATCTTCGAG
455 GCATCAACCATTTGATTTTCTTCTCTATACACATAGTGAAAGGTGACTTTATCGAAATCTTCGAG
* *
10665193 CATATCCAGTATTAGCTTCTGGTACTCCACCAGCTTTATATCCTTGGTTTTCCACTCTCCA
520 CATATCCAGTATTAGCTTCTGGTACTCCACCAGCTTTACATCCTTGGTTTCCCACTCTCCA
10665254 TGGAGCTGAT
Statistics
Matches: 553, Mismatches: 25, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
579 344 0.62
580 209 0.38
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (580 bp):
CGTAAATTTGACATTTATGACATCTTCTAGCATAGTTGATGCAGTCAATTTCCAGTGTGGACCAA
AAATATTCGCATATCATTATTTGCCTTGACATCATATGTCCATTTGCATGTGTTCCACAAACTCC
GTCATGTACTTCCTCCACTATCATCTTTGCCTCTTCTGCATCTACACACCTTAACAGGACTCGAT
CATGGATTTTCTTGTATAAGACCTCCCCATCAAGGACACATCCAACTGCCATCCTTCTAATGGTT
CTTTTATAAGTTTTGGTGGCCTCCTCTGGATAACTTCATTTTTTATGTATTGCAGAACATCATGG
TACCAGGGCTTAGTGTCTTTCACTTCCTCAACTTGGTAACAATGAGTCGAGTACTCATATGATTG
CATGTCAATTGACATCATTTCAGACTCCCCACCAGCCTTGAATGCGGCTGCCAAGGTAGCTAAAG
CATCAACCATTTGATTTTCTTCTCTATACACATAGTGAAAGGTGACTTTATCGAAATCTTCGAGC
ATATCCAGTATTAGCTTCTGGTACTCCACCAGCTTTACATCCTTGGTTTCCCACTCTCCA
Found at i:10674409 original size:11 final size:11
Alignment explanation
Indices: 10674362--10674409 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
10674352 TAAGATTAAA
10674362 AAAATAGAAAC
1 AAAATAGAAAC
10674373 AAAA-AGAAAGC
1 AAAATAGAAA-C
10674384 AAAA-AGAAA-
1 AAAATAGAAAC
*
10674393 AGAATAGAAAC
1 AAAATAGAAAC
10674404 AAAATA
1 AAAATA
10674410 AAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 3 0.09
10 10 0.31
11 19 0.59
ACGTcount: A:0.75, C:0.06, G:0.12, T:0.06
Consensus pattern (11 bp):
AAAATAGAAAC
Found at i:10674422 original size:13 final size:13
Alignment explanation
Indices: 10674404--10674429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10674394 GAATAGAAAC
10674404 AAAATAAAAAAAT
1 AAAATAAAAAAAT
10674417 AAAATAAAAAAAT
1 AAAATAAAAAAAT
10674430 GTATATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:10674472 original size:13 final size:13
Alignment explanation
Indices: 10674454--10674479 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10674444 AATATAGTAT
10674454 TTAATAAATAAAA
1 TTAATAAATAAAA
10674467 TTAATAAATAAAA
1 TTAATAAATAAAA
10674480 AGGGGAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAATAAATAAAA
Found at i:10674587 original size:11 final size:9
Alignment explanation
Indices: 10674550--10674583 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
10674540 AAAAAAATAA
10674550 AAAATATAT
1 AAAATATAT
10674559 AAAATATAT
1 AAAATATAT
10674568 AAAATATAT
1 AAAATATAT
10674577 AATAATA
1 AA-AATA
10674584 ATATTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATATAT
Found at i:10675697 original size:2 final size:2
Alignment explanation
Indices: 10675690--10675719 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10675680 AAAATGAGTA
10675690 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10675720 TCAATATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10675774 original size:9 final size:9
Alignment explanation
Indices: 10675688--10675775 Score: 53
Period size: 8 Copynumber: 10.0 Consensus size: 9
10675678 ATAAAATGAG
10675688 TAATATATA
1 TAATATATA
10675697 T-ATATATA
1 TAATATATA
10675705 T-ATATATA
1 TAATATATA
10675713 T-ATATAT-
1 TAATATATA
10675720 TCAATATTATA
1 T-AATA-TATA
* * * *
10675731 AACAAAAATG
1 TA-ATATATA
10675741 TAATATATA
1 TAATATATA
10675750 TACATAT-TA
1 TA-ATATATA
*
10675759 TAA-ATATG
1 TAATATATA
10675767 TAATATATA
1 TAATATATA
10675776 ATGTATACCA
Statistics
Matches: 61, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
7 3 0.05
8 27 0.44
9 18 0.30
10 11 0.18
11 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.42
Consensus pattern (9 bp):
TAATATATA
Found at i:10684181 original size:29 final size:29
Alignment explanation
Indices: 10684103--10684184 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
10684093 CAGTGGCCGT
* ** *
10684103 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACTCCCGGCGACCAACG
* *
10684132 AGGTCGCCATGCACGCCCGGCGACCAAGG
1 AGGTCGCCATGCACTCCCGGCGACCAACG
*
10684161 AGGTCGCCATGCACTCGCGGCGAC
1 AGGTCGCCATGCACTCCCGGCGAC
10684185 ATCCCCTGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.18, C:0.40, G:0.29, T:0.12
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCGGCGACCAACG
Found at i:10684432 original size:29 final size:29
Alignment explanation
Indices: 10684399--10684457 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
10684389 CATGCATGAA
10684399 TCCTTGGTCGCCCCGAGTGCATGACGACC
1 TCCTTGGTCGCCCCGAGTGCATGACGACC
** * *
10684428 TCCTTGGTCGCCGGGCGTGCATGGCGACC
1 TCCTTGGTCGCCCCGAGTGCATGACGACC
10684457 T
1 T
10684458 AGGAGGTCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.10, C:0.36, G:0.32, T:0.22
Consensus pattern (29 bp):
TCCTTGGTCGCCCCGAGTGCATGACGACC
Found at i:10686456 original size:13 final size:13
Alignment explanation
Indices: 10686438--10686468 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10686428 GTTTTTGTTA
10686438 TTTTTTTACTTTC
1 TTTTTTTACTTTC
*
10686451 TTTTTTTATTTTC
1 TTTTTTTACTTTC
10686464 TTTTT
1 TTTTT
10686469 CTTTTCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTACTTTC
Found at i:10686457 original size:25 final size:24
Alignment explanation
Indices: 10686402--10686457 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
10686392 ATAATATATA
10686402 TTTTTTTGTTATTTTTCTAATTTT
1 TTTTTTTGTTATTTTTCTAATTTT
* * * *
10686426 TGGTTTTTGTTATTTTTTTACTTTC
1 T-TTTTTTGTTATTTTTCTAATTTT
10686451 TTTTTTT
1 TTTTTTT
10686458 ATTTTCTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.79
Consensus pattern (24 bp):
TTTTTTTGTTATTTTTCTAATTTT
Found at i:10687863 original size:13 final size:13
Alignment explanation
Indices: 10687845--10687870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10687835 ACCCAGTAAG
10687845 TCGTCCCTCCTCC
1 TCGTCCCTCCTCC
10687858 TCGTCCCTCCTCC
1 TCGTCCCTCCTCC
10687871 GTCCGCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.62, G:0.08, T:0.31
Consensus pattern (13 bp):
TCGTCCCTCCTCC
Found at i:10689688 original size:14 final size:14
Alignment explanation
Indices: 10689669--10689744 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
10689659 TAATATATTC
10689669 GTTTATGTTCGTTA
1 GTTTATGTTCGTTA
*
10689683 GTTTATGTTCATTCA
1 GTTTATGTTCGTT-A
10689698 -TTTATGTTCGTT-
1 GTTTATGTTCGTTA
* *
10689710 -TATAT-TT-GTTC
1 GTTTATGTTCGTTA
*
10689721 GTTTATGTTCATTA
1 GTTTATGTTCGTTA
*
10689735 ATTTATGTTC
1 GTTTATGTTC
10689745 ATTTATGTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
10 3 0.06
11 2 0.04
12 8 0.16
13 2 0.04
14 34 0.68
15 1 0.02
ACGTcount: A:0.17, C:0.09, G:0.14, T:0.59
Consensus pattern (14 bp):
GTTTATGTTCGTTA
Found at i:10689708 original size:38 final size:38
Alignment explanation
Indices: 10689666--10689752 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 38
10689656 CAATAATATA
*
10689666 TTCGTTTATGTTCGTTAGTTTATGTTCATTCATTTATG
1 TTCGTTTATGTTCGTTAGTTTATGTTCATTAATTTATG
* * *
10689704 TTCGTTTATATTTGTTCGTTTATGTTCATTAATTTATG
1 TTCGTTTATGTTCGTTAGTTTATGTTCATTAATTTATG
*
10689742 TTCATTTATGT
1 TTCGTTTATGT
10689753 GCAGTGTAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.17, C:0.09, G:0.14, T:0.60
Consensus pattern (38 bp):
TTCGTTTATGTTCGTTAGTTTATGTTCATTAATTTATG
Found at i:10689725 original size:24 final size:24
Alignment explanation
Indices: 10689694--10689752 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
10689684 TTTATGTTCA
10689694 TTCATTTATGTTCGTTTATATTTG
1 TTCATTTATGTTCGTTTATATTTG
* * *
10689718 TTCGTTTATGTTCATTAAT-TTATG
1 TTCATTTATGTTCGTTTATATT-TG
10689742 TTCATTTATGT
1 TTCATTTATGT
10689753 GCAGTGTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 28 0.93
ACGTcount: A:0.19, C:0.08, G:0.12, T:0.61
Consensus pattern (24 bp):
TTCATTTATGTTCGTTTATATTTG
Found at i:10690548 original size:18 final size:18
Alignment explanation
Indices: 10690522--10690567 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
10690512 ACCGGTCACA
10690522 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
10690540 ACCCAACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
10690558 ACCCGACCCG
1 ACCCGACCCG
10690568 TTGACTGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.52, G:0.20, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:10690560 original size:8 final size:8
Alignment explanation
Indices: 10690549--10690595 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
10690539 GACCCAACCC
10690549 GACCCGTT
1 GACCCGTT
10690557 GACCC---
1 GACCCGTT
10690562 GACCCGTT
1 GACCCGTT
*
10690570 GA-CTGTT
1 GACCCGTT
10690577 GACCCGTT
1 GACCCGTT
10690585 GA-CCGTT
1 GACCCGTT
10690592 GACC
1 GACC
10690596 GGAGTTGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
5 5 0.16
7 13 0.41
8 14 0.44
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:10690561 original size:13 final size:13
Alignment explanation
Indices: 10690545--10690572 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
10690535 CGTTGACCCA
10690545 ACCCGACCCGTTG
1 ACCCGACCCGTTG
10690558 ACCCGACCCGTTG
1 ACCCGACCCGTTG
10690571 AC
1 AC
10690573 TGTTGACCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.46, G:0.21, T:0.14
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:10690582 original size:15 final size:15
Alignment explanation
Indices: 10690549--10690595 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
10690539 GACCCAACCC
*
10690549 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
*
10690562 GACCCGTTGACTGTT
1 GACCCGTTGACCGTT
10690577 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
10690592 GACC
1 GACC
10690596 GGAGTTGACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 11 0.38
15 18 0.62
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:10693045 original size:24 final size:24
Alignment explanation
Indices: 10693018--10693132 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
10693008 TCGATTTGAT
10693018 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
10693042 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
10693066 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
10693090 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
* *
10693113 TTTTTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
10693133 CTGATTTATG
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
23 3 0.04
24 78 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:10693155 original size:24 final size:24
Alignment explanation
Indices: 10693069--10693142 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
10693059 ACATGGATTC
* * *
10693069 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
10693093 TGATCTGTTACTTGACCTGATTTT
1 TGATATGATACTTGACCTGATTTA
10693117 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
10693141 TG
1 TG
10693143 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.45
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:10694150 original size:24 final size:23
Alignment explanation
Indices: 10694119--10694192 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 23
10694109 TTTACGTTCA
10694119 TTTACGTTCATTTATTGTGTTCGT
1 TTTACGTTC-TTTATTGTGTTCGT
* *
10694143 TTTGCGTTCTTTCATT-TGTAT-TT
1 TTTACGTTCTTT-ATTGTGT-TCGT
10694166 ATTTACGTTCGTTTATTGTGTTCGT
1 -TTTACGTTC-TTTATTGTGTTCGT
10694191 TT
1 TT
10694193 ATATCCGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
23 7 0.17
24 26 0.65
25 7 0.17
ACGTcount: A:0.11, C:0.12, G:0.16, T:0.61
Consensus pattern (23 bp):
TTTACGTTCTTTATTGTGTTCGT
Found at i:10694182 original size:14 final size:13
Alignment explanation
Indices: 10694163--10694216 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 13
10694153 TTCATTTGTA
10694163 TTTATTTACGTTCG
1 TTTATTT-CGTTCG
10694177 TTTATTGT-GTTCG
1 TTTATT-TCGTTCG
*
10694190 TTTATATCCGTTCG
1 TTTAT-TTCGTTCG
10694204 TTTATGTTCGTTC
1 TTTAT-TTCGTTC
10694217 ATTTGTGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 10 0.29
14 23 0.68
15 1 0.03
ACGTcount: A:0.11, C:0.15, G:0.17, T:0.57
Consensus pattern (13 bp):
TTTATTTCGTTCG
Found at i:10698680 original size:65 final size:64
Alignment explanation
Indices: 10698547--10698702 Score: 235
Period size: 65 Copynumber: 2.4 Consensus size: 64
10698537 ACACCCCATT
*
10698547 TCGAATGCATTTTATGCATCGATGCACTGCCATGCATCGATGCACTCAAGATTTTATGGAAACA
1 TCGAATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTCAAGATTTTATGGAAACA
* * *
10698611 TCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCATTCTAGGCTTGTT-T-GAAA
1 TCGAATGCATTTTATGCATCGATGCACAG-CCATGCATCGATGCACTC-AAGATT-TTATGGAAA
10698674 CA
63 CA
10698676 TCGAATGCATTTTATGCATCGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
10698703 CCTTAGTGCA
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
64 28 0.33
65 50 0.59
66 5 0.06
67 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACAGCCATGCATCGATGCACTCAAGATTTTATGGAAACA
Found at i:10704104 original size:21 final size:21
Alignment explanation
Indices: 10704078--10704157 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
10704068 TTGTGCATAA
10704078 TGCATCGATACACTATGAAGG
1 TGCATCGATACACTATGAAGG
* *
10704099 TGCATCGATGCATCCCTATGAATG
1 TGCATCGAT--A-CACTATGAAGG
* *
10704123 TGCATTGATACA-TCATGAAGA
1 TGCATCGATACACT-ATGAAGG
* *
10704144 TGCACCGATGCACT
1 TGCATCGATACACT
10704158 CCTTGAATAT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 24 0.53
22 2 0.04
23 1 0.02
24 17 0.38
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (21 bp):
TGCATCGATACACTATGAAGG
Found at i:10704125 original size:24 final size:24
Alignment explanation
Indices: 10704090--10704178 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
10704080 CATCGATACA
*
10704090 CTATGAAGGTGCATCGATGCATCC
1 CTATGAATGTGCATCGATGCATCC
* *
10704114 CTATGAATGTGCATTGATACAT--
1 CTATGAATGTGCATCGATGCATCC
*
10704136 C-ATGAA-GATGCACCGATGCA-CTC
1 CTATGAATG-TGCATCGATGCATC-C
*
10704159 CT-TGAATATGCATCGATGCA
1 CTATGAATGTGCATCGATGCA
10704179 CTCATCAGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
20 1 0.02
21 14 0.27
22 1 0.02
23 16 0.31
24 19 0.37
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
CTATGAATGTGCATCGATGCATCC
Found at i:10704142 original size:45 final size:44
Alignment explanation
Indices: 10704077--10704180 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 44
10704067 TTTGTGCATA
* *
10704077 ATGCATCGATACACTATGAAGGTGCATCGATGCA-TCCCTATGAAT
1 ATGCATCGATACACTATGAAGATGCACCGATGCACT-CCT-TGAAT
* *
10704122 GTGCATTGATACA-TCATGAAGATGCACCGATGCACTCCTTGAAT
1 ATGCATCGATACACT-ATGAAGATGCACCGATGCACTCCTTGAAT
*
10704166 ATGCATCGATGCACT
1 ATGCATCGATACACT
10704181 CATCAGTGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
44 16 0.33
45 32 0.65
46 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
ATGCATCGATACACTATGAAGATGCACCGATGCACTCCTTGAAT
Found at i:10704164 original size:23 final size:23
Alignment explanation
Indices: 10704138--10704181 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10704128 TGATACATCA
10704138 TGAAGATGCACCGATGCACTCCT
1 TGAAGATGCACCGATGCACTCCT
* *
10704161 TGAATATGCATCGATGCACTC
1 TGAAGATGCACCGATGCACTC
10704182 ATCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (23 bp):
TGAAGATGCACCGATGCACTCCT
Found at i:10704204 original size:20 final size:20
Alignment explanation
Indices: 10704167--10704204 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10704157 TCCTTGAATA
* *
10704167 TGCATCGATGCACTCATCAG
1 TGCATCGATACACCCATCAG
10704187 TGCATCGATACACCCATC
1 TGCATCGATACACCCATC
10704205 GGGTTTTGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (20 bp):
TGCATCGATACACCCATCAG
Found at i:10706808 original size:18 final size:18
Alignment explanation
Indices: 10706787--10706855 Score: 138
Period size: 18 Copynumber: 3.8 Consensus size: 18
10706777 AATGCATTTT
10706787 ATGCATCGATGCACTGCC
1 ATGCATCGATGCACTGCC
10706805 ATGCATCGATGCACTGCC
1 ATGCATCGATGCACTGCC
10706823 ATGCATCGATGCACTGCC
1 ATGCATCGATGCACTGCC
10706841 ATGCATCGATGCACT
1 ATGCATCGATGCACT
10706856 CAGGATTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (18 bp):
ATGCATCGATGCACTGCC
Found at i:10706826 original size:10 final size:10
Alignment explanation
Indices: 10706795--10706845 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
10706785 TTATGCATCG
10706795 ATGCACTGCC
1 ATGCACTGCC
*
10706805 ATGCA-T-CG
1 ATGCACTGCC
10706813 ATGCACTGCC
1 ATGCACTGCC
*
10706823 ATGCA-T-CG
1 ATGCACTGCC
10706831 ATGCACTGCC
1 ATGCACTGCC
10706841 ATGCA
1 ATGCA
10706846 TCGATGCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 12 0.36
9 4 0.12
10 17 0.52
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (10 bp):
ATGCACTGCC
Found at i:10706876 original size:46 final size:46
Alignment explanation
Indices: 10706826--10706943 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
10706816 CACTGCCATG
*
10706826 CATCG-ATGCACTGCCATGCATCGATGCACTCAGGATTTTATGGAAA
1 CATCGAATGCA-TGCCATGCATCGATGAACTCAGGATTTTATGGAAA
***
10706872 CATCGAATGCATTTTATGCATCGATGAACTCAGGATTTTATGGAAA
1 CATCGAATGCATGCCATGCATCGATGAACTCAGGATTTTATGGAAA
***
10706918 CATCGAATGCATTTTATGCATCGATG
1 CATCGAATGCATGCCATGCATCGATG
10706944 TACAGACCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 62 0.93
47 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (46 bp):
CATCGAATGCATGCCATGCATCGATGAACTCAGGATTTTATGGAAA
Found at i:10706888 original size:22 final size:22
Alignment explanation
Indices: 10706860--10706935 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
10706850 TGCACTCAGG
10706860 ATTTTATGGAAACATCGAATGC
1 ATTTTATGGAAACATCGAATGC
* * *
10706882 ATTTTAT-GCATCGAT-GAACTCAGG
1 ATTTTATGGAAAC-ATCGAA-T--GC
10706906 ATTTTATGGAAACATCGAATGC
1 ATTTTATGGAAACATCGAATGC
10706928 ATTTTATG
1 ATTTTATG
10706936 CATCGATGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
21 6 0.14
22 19 0.45
24 11 0.26
25 6 0.14
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (22 bp):
ATTTTATGGAAACATCGAATGC
Found at i:10706940 original size:64 final size:62
Alignment explanation
Indices: 10706887--10707009 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 62
10706877 AATGCATTTT
10706887 ATGCATCGATGAACT-CAGGATT-TTATGGAAACATCGAATGCATTTTATGCATCGATGTACAGA
1 ATGCATCGATGAACTCCAGGATTGTT-T-GAAA-ATCGAATGCATTTTATGCATCGATG--CAGA
10706950 CC
61 CC
* **
10706952 ATGCATCGATGCACTCCAGTCTTGTTTGAAAATCGAATGCATTTTATGCATCGATGCA
1 ATGCATCGATGAACTCCAGGATTGTTTGAAAATCGAATGCATTTTATGCATCGATGCA
10707010 CCCTTAGTGC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
62 2 0.04
64 25 0.47
65 18 0.34
66 6 0.11
67 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (62 bp):
ATGCATCGATGAACTCCAGGATTGTTTGAAAATCGAATGCATTTTATGCATCGATGCAGACC
Found at i:10709349 original size:2 final size:2
Alignment explanation
Indices: 10709336--10709380 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
10709326 ACGCGTGTAA
*
10709336 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10709378 AT A
1 AT A
10709381 GTTAGGTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10711270 original size:19 final size:19
Alignment explanation
Indices: 10711242--10711282 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
10711232 TTCTAAAGCA
*
10711242 TGATTGGGTAGATATCATG
1 TGATTAGGTAGATATCATG
10711261 TGATTAGGTAGATATCATG
1 TGATTAGGTAGATATCATG
10711280 TGA
1 TGA
10711283 GGGTAGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (19 bp):
TGATTAGGTAGATATCATG
Found at i:10717256 original size:125 final size:125
Alignment explanation
Indices: 10717032--10717261 Score: 336
Period size: 125 Copynumber: 1.8 Consensus size: 125
10717022 TGGGGCACGG
* * *
10717032 TTGAACCCACATCATGTTGAAATAACAAGATTCAGACCAAGGAGGCATGAAGAATTAGCCTTACA
1 TTGAACCCACATCATGTTGAAATAACAAGATTCAGACCAAGAAAGCATGAAGAATGAGCCTTACA
* * *
10717097 ATTTGAGGTGATGGGGCATTTTGAAGGCCTGTACCAGTATAAGACACTGATACAACATGA
66 ATATGAGATGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACACTGATACAACATGA
* * * *
10717157 TTGAACCCACATCATGTTGAGATGACAAGATTTAGACCAAGAAAGCATTG-AGAGTGAGCCTTAC
1 TTGAACCCACATCATGTTGAAATAACAAGATTCAGACCAAGAAAGCA-TGAAGAATGAGCCTTAC
* *
10717221 AATATGAGATGTTGGGGTATTTTGAAGGCCCGTACCAGTAT
65 AATATGAGATGATGGGGCATTTTGAAGGCCCGTACCAGTAT
10717262 GAGATAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
125 90 0.98
126 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (125 bp):
TTGAACCCACATCATGTTGAAATAACAAGATTCAGACCAAGAAAGCATGAAGAATGAGCCTTACA
ATATGAGATGATGGGGCATTTTGAAGGCCCGTACCAGTATAAGACACTGATACAACATGA
Found at i:10718293 original size:36 final size:36
Alignment explanation
Indices: 10718243--10719019 Score: 396
Period size: 36 Copynumber: 20.9 Consensus size: 36
10718233 GGGCAAGTAA
* * *
10718243 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
** * * *
10718279 ATCTTAAGATTTCACCAAAGAGGAGTGAA--ACACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* * * *
10718313 ATCCTAAGCCTTCACCGGAGAATAATGAAGCAAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* * ** * **
10718349 ATATGAAGCCTTCATTGGAGAGTAACGAAGCAAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* *
10718385 ATCCTAAGCTTTCACCGGAA-AGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACC-GAAGAGTAGTGAAGCAAACC
* * *
10718421 ATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* * * *
10718457 ATCTGAAGCCTTCACTGGAGAGTAGTGAAGCAAATC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* * * *
10718493 ATCCTAAGCCTTCACCGGAGAATAATGAAGCAAACC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* *
10718529 AT-TTGAAGTCTTCACCGAAGAGTAGTGAAGTAAACC
1 ATCTT-AAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* * * *
10718565 ATCTTAAGCCTTTACTGAAGAGGAGTGAAGCAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
* *
10718601 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAAATCC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CC
* * * * * ** *
10718638 ATCAGTAAGCCTTTCGAGC-ATGATTA-TTAAGTCCTCCAGGCA
1 ATC-TTAAGCC-TTC-ACCGAAGAGTAGTGAAG-----CAAACC
* *** *
10718680 ATCTTAAGTCTTCTTTGAAGAGTAGTGAAGCAAATTC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CC
* * * * *
10718717 AGCATAAGCCTTCACAGAAGAGTGGTGAAGCAAATTC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CC
* * * * **** *** *
10718754 ATCAGTAAGCCTTCCTAGCATGATGATTAAGTCCTCCGGGCT
1 ATC-TTAAGCCTT-C-A-C-CGAAGAGT-AGTGAAGCAAACC
* * *
10718796 ATCTTAAACCTTCACCAAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CC
* * **
10718833 ATCTTAAGCCTTCACTGAAGAATAGTGAAGCAAATTT
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CC
* * * *
10718870 ATCATAAGCCTTCACGGAATAGTAGTGAAGCAAATTC
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CC
* * * * **** ***
10718907 ATCAGTAAGCCTTTCGAGCATGATGATTAAGTCCTCCGGGCC
1 ATC-TTAAGCC-TTC-A-C-CGAAGAGT-AGTGAAGCAAACC
* *
10718949 ATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA-CC
*
10718986 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAA
10719020 TTCATCAGTA
Statistics
Matches: 548, Mismatches: 161, Indels: 63
0.71 0.21 0.08
Matches are distributed among these distances:
34 23 0.04
35 3 0.01
36 266 0.49
37 150 0.27
38 26 0.05
39 14 0.03
40 15 0.03
41 23 0.04
42 20 0.04
43 8 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAACC
Found at i:10718746 original size:37 final size:38
Alignment explanation
Indices: 10718696--10718919 Score: 126
Period size: 37 Copynumber: 5.9 Consensus size: 38
10718686 AGTCTTCTTT
10718696 GAAGAGTAGTGAAGCAAATTCAGCA-TAAGCCTTCACA
1 GAAGAGTAGTGAAGCAAATTCAGCAGTAAGCCTTCACA
* *
10718733 GAAGAGTGGTGAAGCAAATTCATCAGTAAGCCTTC-CTA
1 GAAGAGTAGTGAAGCAAATTCAGCAGTAAGCCTTCAC-A
* * * * * * *
10718771 GCATGA-T-GATTAAGTC--CTCCGGGCTATCTTAAACCTTCACCA
1 G-AAGAGTAG-TGAAG-CAAATTC-AGC-A--GTAAGCCTTCA-CA
* * *
10718813 -AAGAGTAGTGAAGCAAA-TCAATC-TTAAGCCTTCACT
1 GAAGAGTAGTGAAGCAAATTC-AGCAGTAAGCCTTCACA
* * * *
10718849 GAAGAATAGTGAAGCAAATTTATCA-TAAGCCTTCACG
1 GAAGAGTAGTGAAGCAAATTCAGCAGTAAGCCTTCACA
* *
10718886 GAATAGTAGTGAAGCAAATTCATCAGTAAGCCTT
1 GAAGAGTAGTGAAGCAAATTCAGCAGTAAGCCTT
10718920 TCGAGCATGA
Statistics
Matches: 143, Mismatches: 25, Indels: 37
0.70 0.12 0.18
Matches are distributed among these distances:
36 1 0.01
37 89 0.62
38 26 0.18
39 5 0.03
40 4 0.03
41 15 0.10
42 2 0.01
43 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (38 bp):
GAAGAGTAGTGAAGCAAATTCAGCAGTAAGCCTTCACA
Found at i:10718774 original size:116 final size:116
Alignment explanation
Indices: 10718565--10718882 Score: 399
Period size: 116 Copynumber: 2.8 Consensus size: 116
10718555 GAAGTAAACC
* * * *
10718565 ATCTTAAGCCTTTACTGAAGAGGAGTGAAGC-AATCCATCTTAAGCCTTCACAGAAGAGTAGTGA
1 ATCTTAAACCTTCACTGAAGAGTAGTGAAGCAAATTCATCTTAAGCCTTCACAGAAGAGTAGTGA
* * * *
10718629 AGAAAATCCATCAGTAAGCCTTTCGAGCATGATTATTAAGTCCTCCAGGCA
66 AGCAAATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCAGGCA
** ** * * *
10718680 ATCTTAAGTCTTCTTTGAAGAGTAGTGAAGCAAATTCAGCATAAGCCTTCACAGAAGAGTGGTGA
1 ATCTTAAACCTTCACTGAAGAGTAGTGAAGCAAATTCATCTTAAGCCTTCACAGAAGAGTAGTGA
* * *
10718745 AGCAAATTCATCAGTAAGCCTTCCTAGCATGATGATTAAGTCCTCCGGGCT
66 AGCAAATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCAGGCA
** * *
10718796 ATCTTAAACCTTCACCAAAGAGTAGTGAAGCAAA-TCAATCTTAAGCCTTCACTGAAGAATAGTG
1 ATCTTAAACCTTCACTGAAGAGTAGTGAAGCAAATTC-ATCTTAAGCCTTCACAGAAGAGTAGTG
*
10718860 AAGCAAATTTATCA-TAAGCCTTC
65 AAGCAAATTCATCAGTAAGCCTTC
10718883 ACGGAATAGT
Statistics
Matches: 173, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
115 37 0.21
116 136 0.79
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (116 bp):
ATCTTAAACCTTCACTGAAGAGTAGTGAAGCAAATTCATCTTAAGCCTTCACAGAAGAGTAGTGA
AGCAAATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCAGGCA
Found at i:10718867 original size:153 final size:153
Alignment explanation
Indices: 10718678--10719036 Score: 574
Period size: 153 Copynumber: 2.3 Consensus size: 153
10718668 GTCCTCCAGG
* ** * *
10718678 CAATCTTAAGTCTTCTTTGAAGAGTAGTGAAGCAAATTCAGCATAAGCCTTCACAGAAGAGTGGT
1 CAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATTCATCATAAGCCTTCACAGAAGAGTAGT
* *
10718743 GAAGCAAATTCATCAGTAAGCCTTCCTAGCATGATGATTAAGTCCTCCGGGCTATCTTAAACCTT
66 GAAGCAAATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCGGGCCATCTTAAACCTT
10718808 CACCAAAGAGTAGTGAAGCAAAT
131 CACCAAAGAGTAGTGAAGCAAAT
* * * *
10718831 CAATCTTAAGCCTTCACTGAAGAATAGTGAAGCAAATTTATCATAAGCCTTCACGGAATAGTAGT
1 CAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATTCATCATAAGCCTTCACAGAAGAGTAGT
*
10718896 GAAGCAAATTCATCAGTAAGCCTTTCGAGCATGATGATTAAGTCCTCCGGGCCATCTTAAACCTT
66 GAAGCAAATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCGGGCCATCTTAAACCTT
*
10718961 CACCGAAGAGTAGTGAAGCAAAT
131 CACCAAAGAGTAGTGAAGCAAAT
**
10718984 CAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTC
1 CAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATTCATCA-TAAGCCTTC
10719037 CAAGCATGAT
Statistics
Matches: 188, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
153 179 0.95
154 9 0.05
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (153 bp):
CAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATTCATCATAAGCCTTCACAGAAGAGTAGT
GAAGCAAATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCGGGCCATCTTAAACCTT
CACCAAAGAGTAGTGAAGCAAAT
Found at i:10718914 original size:269 final size:269
Alignment explanation
Indices: 10718538--10719138 Score: 850
Period size: 269 Copynumber: 2.2 Consensus size: 269
10718528 CATTTGAAGT
* * * * *
10718538 CTTCACCGAAGAGTAGTGAAGTAAA-CCATCTTAAGCCTTTACTGAAGAGGAGTGAAGC-AATCC
1 CTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCC
* *
10718601 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAAAATCCATCAGTAAGCCTTTCGAGCATGATTATT
66 ATCATAAGCCTTCACAGAAGAGTAGTGAAGAAAATCCATCAGTAAGCCTTTCGAGCATGATGATT
** ***
10718666 AAGTCCTCCAGGCAATCTTAAGTCTTCTTTGAAGAGTAGTGAAGCAAATTC-AGCATAAGCCTTC
131 AAGTCCTCCAGGCAATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAA-TCAAGCATAAGCCTTC
* *
10718730 A-CAGAAGAGTGGTGAAGCAAATTCATCAGTAAGCCTTCCTAGCATGATGATTAAGTCCTCCGGG
195 ACCA-AAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGG
*
10718794 CTATCTTAAAC
259 CCATCTTAAAC
* **
10718805 CTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAATAGTGAAGCAAATTT
1 CTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCC
* * * *
10718870 ATCATAAGCCTTCACGGAATAGTAGTGAAGCAAATTCATCAGTAAGCCTTTCGAGCATGATGATT
66 ATCATAAGCCTTCACAGAAGAGTAGTGAAGAAAATCCATCAGTAAGCCTTTCGAGCATGATGATT
* * * *
10718935 AAGTCCTCCGGGCCATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCA
131 AAGTCCTCCAGGCAATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAATCAAGCATAAGCCTTCA
10719000 CCAAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
196 CCAAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
*
10719065 ATCTTAAGC
261 ATCTTAAAC
* * * * **
10719074 ATTCACCAAAGAGTAGTAAAGCAAAATCAATTTTAAGTCTTCACCAAAGAGTAGTGAAGCAAATC
1 CTTCACCAAAGAGTAGTGAAGC-AAATCAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATC
10719139 AATCTCGAGT
Statistics
Matches: 294, Mismatches: 35, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
267 23 0.08
268 31 0.11
269 202 0.69
270 38 0.13
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (269 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCC
ATCATAAGCCTTCACAGAAGAGTAGTGAAGAAAATCCATCAGTAAGCCTTTCGAGCATGATGATT
AAGTCCTCCAGGCAATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAATCAAGCATAAGCCTTCA
CCAAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
ATCTTAAAC
Found at i:10718961 original size:116 final size:116
Alignment explanation
Indices: 10718833--10719137 Score: 448
Period size: 116 Copynumber: 2.6 Consensus size: 116
10718823 AAGCAAATCA
* * ** ** *
10718833 ATCTTAAGCCTTCACTGAAGAATAGTGAAGCAAATTTATCATAAGCCTTCACGGAATAGTAGTGA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGA
* *
10718898 AGCAAATTCATCAGTAAGCCTTTCGAGCATGATGATTAAGTCCTCCGGGCC
66 AGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
* *
10718949 ATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCACCAAAGAGTAGTGA
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGA
10719014 AGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
66 AGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
* * * ** *
10719065 ATCTTAAGCATTCACCAAAGAGTAGTAAAGCAAAATCAATTTTAAGTCTTCACCAAAGAGTAGTG
1 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGC-AAATCAATCATAAGCCTTCACCAAAGAGTAGTG
10719130 AAGCAAAT
65 AAGCAAAT
10719138 CAATCTCGAG
Statistics
Matches: 171, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
116 132 0.77
117 39 0.23
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (116 bp):
ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCAATCATAAGCCTTCACCAAAGAGTAGTGA
AGCAAATTCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
Found at i:10718976 original size:79 final size:78
Alignment explanation
Indices: 10718725--10718983 Score: 260
Period size: 79 Copynumber: 3.3 Consensus size: 78
10718715 TCAGCATAAG
* * *
10718725 CCTTCACAGAAGAGTGGTGAAGCAAATTCATCAGTAAGCCTTCCTAGCATGATGATTAAGTCCTC
1 CCTTCACCGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTTC-AGCATGATGATTAAGTCCTC
10718790 CGGGCTATCTTAAA
65 CGGGCTATCTTAAA
* * * * ***
10718804 CCTTCACCAAAGAGTAGTGAAGCAAA-TCAATC-TTAAGCC-TTCA-C-TGAAGAAT-AGTGAAG
1 CCTTCACCGAAGAGTAGTGAAGCAAATTC-ATCAGTAAGCCTTTCAGCATGATGATTAAGT-CCT
***** * *
10718863 CAAATTTATCATAAG
64 CCGGGCTATCTTAAA
* *
10718878 CCTTCACGGAATAGTAGTGAAGCAAATTCATCAGTAAGCCTTTCGAGCATGATGATTAAGTCCTC
1 CCTTCACCGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTTC-AGCATGATGATTAAGTCCTC
*
10718943 CGGGCCATCTTAAA
65 CGGGCTATCTTAAA
10718957 CCTTCACCGAAGAGTAGTGAAGCAAAT
1 CCTTCACCGAAGAGTAGTGAAGCAAAT
10718984 CAATCTTAAG
Statistics
Matches: 135, Mismatches: 36, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
73 3 0.02
74 40 0.30
75 9 0.07
76 4 0.03
77 3 0.02
78 9 0.07
79 64 0.47
80 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (78 bp):
CCTTCACCGAAGAGTAGTGAAGCAAATTCATCAGTAAGCCTTTCAGCATGATGATTAAGTCCTCC
GGGCTATCTTAAA
Found at i:10718999 original size:37 final size:37
Alignment explanation
Indices: 10718949--10719020 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
10718939 CCTCCGGGCC
*
10718949 ATCTTAAACCTTCACCGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAACCTTCACCAAAGAGTAGTGAAGCAAATCA
*
10718986 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAAT
1 ATCTTAAACCTTCACCAAAGAGTAGTGAAGCAAAT
10719021 TCATCAGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (37 bp):
ATCTTAAACCTTCACCAAAGAGTAGTGAAGCAAATCA
Found at i:10719737 original size:37 final size:35
Alignment explanation
Indices: 10719674--10719752 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
10719664 GAATCATTCG
* *
10719674 AACAGGGAGGAGAAAGGAGACTGAAAAAAAAATCACC
1 AACAAGGAGGAGAAAGGAGAC--AGAAAAAAATCACC
** *
10719711 AACAAGGAGGAGAAATTAGACAGAAAAAAATCACT
1 AACAAGGAGGAGAAAGGAGACAGAAAAAAATCACC
10719746 AACAAGG
1 AACAAGG
10719753 GGGGGAACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 19 0.51
37 18 0.49
ACGTcount: A:0.56, C:0.13, G:0.24, T:0.08
Consensus pattern (35 bp):
AACAAGGAGGAGAAAGGAGACAGAAAAAAATCACC
Found at i:10726387 original size:2 final size:2
Alignment explanation
Indices: 10726335--10726367 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10726325 TAGGAATTTG
10726335 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10726368 GTGTGTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10727503 original size:7 final size:7
Alignment explanation
Indices: 10727487--10727528 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
10727477 TACTAATATA
10727487 ATAA-AT
1 ATAACAT
10727493 ATAACAT
1 ATAACAT
10727500 ATAACAT
1 ATAACAT
10727507 AATAA-AT
1 -ATAACAT
10727514 ATAACAT
1 ATAACAT
10727521 ATAACAT
1 ATAACAT
10727528 A
1 A
10727529 ATAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 8 0.24
7 21 0.64
8 4 0.12
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAACAT
Found at i:10727510 original size:21 final size:21
Alignment explanation
Indices: 10727466--10727533 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
10727456 AACATAAAAC
* *
10727466 TAAATATAATATACTAATATAA
1 TAAATATAACATA-TAACATAA
10727488 TAAATATAACATATAACATAA
1 TAAATATAACATATAACATAA
10727509 TAAATATAACATATAACATAA
1 TAAATATAACATATAACATAA
10727530 TAAA
1 TAAA
10727534 AAAATATAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 32 0.73
22 12 0.27
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAATATAACATATAACATAA
Found at i:10727517 original size:14 final size:15
Alignment explanation
Indices: 10727484--10727532 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
10727474 ATATACTAAT
10727484 ATAATAA-ATATAAC
1 ATAATAACATATAAC
10727498 AT-ATAACATAATAA-
1 ATAATAACAT-ATAAC
10727512 AT-ATAACATATAAC
1 ATAATAACATATAAC
10727526 ATAATAA
1 ATAATAA
10727533 AAAAATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.26
14 15 0.48
15 8 0.26
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAACATATAAC
Found at i:10727817 original size:19 final size:19
Alignment explanation
Indices: 10727766--10727818 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
10727756 ACCAACAAAA
* *
10727766 TCGCAATGCGATCGCTAAT
1 TCGCAACGCGATCTCTAAT
10727785 TCGCAACGCGATCTCTAAT
1 TCGCAACGCGATCTCTAAT
10727804 TCGCAACGCGATCTC
1 TCGCAACGCGATCTC
10727819 CATTCAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (19 bp):
TCGCAACGCGATCTCTAAT
Found at i:10727907 original size:24 final size:24
Alignment explanation
Indices: 10727854--10727909 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
10727844 CGCGATACTG
* *
10727854 ACTTTGATATTGGTCAATACCCGG
1 ACTTTGATATTGGTCAATACACGA
10727878 ACTTTGATATTGGTCAATACACGA
1 ACTTTGATATTGGTCAATACACGA
*
10727902 ATTTTGAT
1 ACTTTGAT
10727910 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (24 bp):
ACTTTGATATTGGTCAATACACGA
Found at i:10728101 original size:12 final size:12
Alignment explanation
Indices: 10728084--10728108 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10728074 ATATAATCCT
10728084 GAAGAAGAAAAA
1 GAAGAAGAAAAA
10728096 GAAGAAGAAAAA
1 GAAGAAGAAAAA
10728108 G
1 G
10728109 TCCCTGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:10730261 original size:19 final size:19
Alignment explanation
Indices: 10730239--10730336 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
10730229 GGAAATTACT
10730239 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
10730258 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
10730272 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
10730291 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
10730305 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
10730324 ATCGCAACGCGAA
1 ATCGCAATGCGAA
10730337 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 19 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.50
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:10730281 original size:33 final size:33
Alignment explanation
Indices: 10730239--10730332 Score: 179
Period size: 33 Copynumber: 2.8 Consensus size: 33
10730229 GGAAATTACT
10730239 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
10730272 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
10730305 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
10730333 CGAATTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:10730354 original size:19 final size:20
Alignment explanation
Indices: 10730332--10730374 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
10730322 AAATCGCAAC
*
10730332 GCGAATTT-AATTTCGTGTT
1 GCGAATTTCAATTTCGCGTT
* *
10730351 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
10730371 GCGA
1 GCGA
10730375 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:10730534 original size:14 final size:14
Alignment explanation
Indices: 10730515--10730551 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10730505 CATCAATTAA
10730515 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
10730529 ACAAATCACCTTTT
1 ACAAATCAACTTTT
10730543 ACAAATCAA
1 ACAAATCAA
10730552 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:10731972 original size:21 final size:21
Alignment explanation
Indices: 10731906--10731972 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
10731896 GTGAATCGGG
*
10731906 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
10731926 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
10731948 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
10731969 CTCT
1 CTCT
10731973 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:10731991 original size:42 final size:41
Alignment explanation
Indices: 10731906--10732028 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
10731896 GTGAATCGGG
* * * * *
10731906 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
10731948 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
10731990 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
10732029 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:10734041 original size:20 final size:20
Alignment explanation
Indices: 10734012--10734073 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
10734002 CTTTGGTTGA
*
10734012 AATGAAAATCGCAACGAGAT
1 AATGAAAATCGCAACGAGAG
* *
10734032 AATGAGAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
**
10734051 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
10734071 AAT
1 AAT
10734074 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:10734061 original size:19 final size:19
Alignment explanation
Indices: 10734039--10734095 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
10734029 GATAATGAGA
10734039 ATCGCAACGCGGAATGACT
1 ATCGCAACGCGGAATGACT
*
10734058 ATCGCAACG-AG-A-GA--
1 ATCGCAACGCGGAATGACT
*
10734072 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGGAATGACT
10734091 ATCGC
1 ATCGC
10734096 GACCAACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
14 9 0.30
16 3 0.10
17 3 0.10
18 1 0.03
19 14 0.47
ACGTcount: A:0.35, C:0.26, G:0.25, T:0.14
Consensus pattern (19 bp):
ATCGCAACGCGGAATGACT
Found at i:10734077 original size:33 final size:33
Alignment explanation
Indices: 10734035--10734131 Score: 133
Period size: 33 Copynumber: 3.0 Consensus size: 33
10734025 ACGAGATAAT
* *
10734035 GAGAATCGCAACGCGGAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
*
10734068 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
10734101 -ACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
10734132 GCGAAATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
32 27 0.47
33 30 0.53
ACGTcount: A:0.39, C:0.27, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:10734112 original size:32 final size:33
Alignment explanation
Indices: 10734038--10734131 Score: 127
Period size: 32 Copynumber: 2.9 Consensus size: 33
10734028 AGATAATGAG
* * *
10734038 AATCGCAACGCGGAATGACTATCGCAACGAGAG
1 AATCGCAACGCGAAATGACTATCGCAACCAGAC
*
10734071 AATCGCAACGCGAAATGACTATCGCGACCA-AC
1 AATCGCAACGCGAAATGACTATCGCAACCAGAC
**
10734103 AATCGCAACGCGAAATGAAAATCGCAACC
1 AATCGCAACGCGAAATGACTATCGCAACC
10734132 GCGAAATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 27 0.50
33 27 0.50
ACGTcount: A:0.39, C:0.28, G:0.21, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACTATCGCAACCAGAC
Found at i:10734127 original size:19 final size:19
Alignment explanation
Indices: 10734103--10734192 Score: 144
Period size: 19 Copynumber: 4.7 Consensus size: 19
10734093 CGCGACCAAC
10734103 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
10734122 AATCGCAACCGCGAAATTAA
1 AATCGCAA-CGCGAAATGAA
10734142 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
10734161 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
10734180 AATCGCAATGCGA
1 AATCGCAACGCGA
10734193 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 49 0.73
20 18 0.27
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:10734146 original size:39 final size:38
Alignment explanation
Indices: 10734010--10734192 Score: 154
Period size: 39 Copynumber: 5.1 Consensus size: 38
10734000 GTCTTTGGTT
* *
10734010 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
* ** *
10734049 GGAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
10734082 GAAATGACTATCGCGAC-C---A--ACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
10734114 GAAATGAAAATCGCAACCGCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
* *
10734153 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
10734191 GA
1 GA
10734193 TTTTGGTTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
32 25 0.20
33 30 0.25
34 3 0.02
37 2 0.02
38 21 0.17
39 41 0.34
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:10734222 original size:18 final size:19
Alignment explanation
Indices: 10734188--10734231 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
10734178 AAAATCGCAA
*
10734188 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
10734207 TGCGATTTT-ATTTCGCGT
1 TGCGATTTTGATTTCGCGT
10734225 TGCGATT
1 TGCGATT
10734232 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:10734812 original size:20 final size:20
Alignment explanation
Indices: 10734787--10734838 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
10734777 CGCTAAGTAA
*
10734787 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
10734807 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
10734827 ATCTCGTTGCGA
1 ATCGCGTTGCGA
10734839 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:10734858 original size:41 final size:41
Alignment explanation
Indices: 10734806--10734883 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
10734796 CGAAAGTCAG
* * *
10734806 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* * *
10734847 TATCGCATTGCGATAGTCATTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
10734884 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.41
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:10734899 original size:41 final size:41
Alignment explanation
Indices: 10734869--10734964 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
10734859 ATAGTCATTA
* *
10734869 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACTTAT
*
10734910 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACTTAT
10734951 TCGCATTGCGAATT
1 TCGCATTGCGAATT
10734965 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACTTAT
Found at i:10734913 original size:20 final size:20
Alignment explanation
Indices: 10734869--10734961 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
10734859 ATAGTCATTA
* **
10734869 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
10734890 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
10734910 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
10734931 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
10734951 TCGCATTGCGA
1 TCGCATTGCGA
10734962 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:10735065 original size:20 final size:19
Alignment explanation
Indices: 10735040--10735103 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
10735030 CAACGCGAAT
*
10735040 TTGCGATAATGGAGATCGCG
1 TTGCGA-AATAGAGATCGCG
*
10735060 TTGCGAATTAGAGATCGCG
1 TTGCGAAATAGAGATCGCG
* * *
10735079 TTGCGAATTAGCGATCGCA
1 TTGCGAAATAGAGATCGCG
10735098 TTGCGA
1 TTGCGA
10735104 TTTTGTTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (19 bp):
TTGCGAAATAGAGATCGCG
Found at i:10735075 original size:19 final size:19
Alignment explanation
Indices: 10735051--10735103 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
10735041 TGCGATAATG
10735051 GAGATCGCGTTGCGAATTA
1 GAGATCGCGTTGCGAATTA
10735070 GAGATCGCGTTGCGAATTA
1 GAGATCGCGTTGCGAATTA
* *
10735089 GCGATCGCATTGCGA
1 GAGATCGCGTTGCGA
10735104 TTTTGTTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (19 bp):
GAGATCGCGTTGCGAATTA
Found at i:10744133 original size:15 final size:14
Alignment explanation
Indices: 10744113--10744154 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
10744103 TTAAATCAAG
10744113 TATTTTTTAAATATA
1 TATTTTTTAAA-ATA
*
10744128 TATTTTATAAAATA
1 TATTTTTTAAAATA
10744142 TAATTTTTTAAAA
1 T-ATTTTTTAAAA
10744155 CATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTTTAAAATA
Found at i:10744203 original size:15 final size:16
Alignment explanation
Indices: 10744178--10744207 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10744168 CATGATCAAA
10744178 TTTTAAAAATTTTAAC
1 TTTTAAAAATTTTAAC
10744194 TTTT-AAAATTTTAA
1 TTTTAAAAATTTTAA
10744208 TAAAGGACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAAAAATTTTAAC
Done.